Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 167 of 230
Found at i:49699100 original size:91 final size:91
Alignment explanation
Indices: 49698958--49699168 Score: 264
Period size: 91 Copynumber: 2.3 Consensus size: 91
49698948 GTCAAAAGGC
* * *
49698958 TTTTTTATGCATTTTGATAGTTCAAGTATCCAATTGAGCGCAAAAAAAAAAGC-AGGGGCTTAAT
1 TTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGCGCAAAAAAAAAAGCAACGGG-TCAAT
*
49699022 -TACTTATTTTGAAAAATTTTGAGGGCA
65 GT-CTTATTTTGAAAAAGTTTGAGGGCA
* * * *
49699049 TTTTTTATTCAATTTGAAAGTTCAAGTATCCAATTGAGTGTAAAAAAAAAAGCAACGGGTCAATG
1 TTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGCGCAAAAAAAAAAGCAACGGGTCAAT-
* * *
49699114 GTTTTTTTTTGAAAAAGTTTGAGGGCC
65 GTCTTATTTTGAAAAAGTTTGAGGGCA
* *
49699141 TTTCTGATGCATTTTGAAAGTTCAAGTA
1 TTTTTTATGCATTTTGAAAGTTCAAGTA
49699169 CCTAATTAAG
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
91 52 0.51
92 49 0.48
93 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (91 bp):
TTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGCGCAAAAAAAAAAGCAACGGGTCAATG
TCTTATTTTGAAAAAGTTTGAGGGCA
Found at i:49699186 original size:92 final size:91
Alignment explanation
Indices: 49698964--49699192 Score: 257
Period size: 92 Copynumber: 2.5 Consensus size: 91
49698954 AGGCTTTTTT
* * * *
49698964 ATGCATTTTGATAGTTCAAGTATCCAATTGAGCGCAAAAAAAAAAGCAGGGGCTTAATTACTTAT
1 ATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAGCACGGGCTCAATTACTTAT
* * *
49699029 TTTGAAAAATTTTGAGGGCATTTTTT
66 TTTGAAAAAGTTTGAGGGCATTTCTG
* * * *
49699055 ATTCAATTTGAAAGTTCAAGTATCCAATTGAGTGTAAAAAAAAAAGCAACGGG-TCAATGGT-TT
1 ATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAGC-ACGGGCTCAAT--TACT
* *
49699118 TTTTTTGAAAAAGTTTGAGGGCCTTTCTG
63 TATTTTGAAAAAGTTTGAGGGCATTTCTG
* * *
49699147 ATGCATTTTGAAAGTTCAAGTA-CCTAATTAAGTACAAAAACAAAAG
1 ATGCATTTTGAAAGTTCAAGTATCC-AATTGAGTGCAAAAAAAAAAG
49699193 GGTTTAATTG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
91 48 0.42
92 66 0.57
93 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (91 bp):
ATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAGCACGGGCTCAATTACTTAT
TTTGAAAAAGTTTGAGGGCATTTCTG
Found at i:49701375 original size:27 final size:27
Alignment explanation
Indices: 49701337--49701389 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
49701327 AAAATGATTA
*
49701337 AAATATGTAAAAAGCTGGGGTTATATG
1 AAATATGTAAAAAGATGGGGTTATATG
49701364 AAATATGTAAAAAGATGGGGTTATAT
1 AAATATGTAAAAAGATGGGGTTATAT
49701390 TTAACTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (27 bp):
AAATATGTAAAAAGATGGGGTTATATG
Found at i:49704726 original size:14 final size:16
Alignment explanation
Indices: 49704696--49704727 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
49704686 CTACTCTTGG
49704696 TTTAACATTCATTTGT
1 TTTAACATTCATTTGT
49704712 TTTAA-ATTC-TTTGT
1 TTTAACATTCATTTGT
49704726 TT
1 TT
49704728 CAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTAACATTCATTTGT
Found at i:49706245 original size:43 final size:43
Alignment explanation
Indices: 49706131--49706257 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
49706121 ATTTTCGATA
*
49706131 TGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
* *
49706174 TGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATTGACT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
* * **
49706217 TGTGTTTACGTGTAAGACC-CTGTTTGGGACAATGGCATCGA
1 TGTGTTTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGA
49706258 TCTGTAAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
Found at i:49707276 original size:30 final size:30
Alignment explanation
Indices: 49707207--49707277 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
49707197 GCCCTTAAAC
* *
49707207 TTTTCCAAATTTATATTTTGACCCCTAACA
1 TTTTCTAAATTTATATCTTGACCCCTAACA
*
49707237 TTTTCTAAATTTATATCTTGACCCCTAATA
1 TTTTCTAAATTTATATCTTGACCCCTAACA
*
49707267 TTTTGTAAATT
1 TTTTCTAAATT
49707278 ACATTTGGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (30 bp):
TTTTCTAAATTTATATCTTGACCCCTAACA
Found at i:49707309 original size:30 final size:29
Alignment explanation
Indices: 49707273--49707342 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
49707263 AATATTTTGT
49707273 AAATTACATTTGGGCCCCTAAACTTT-CTAG
1 AAATTACATTTGGGCCCC-AAACTTTCCT-G
* * *
49707303 AAATTACATTTTGGCCCCATATTTTCCTG
1 AAATTACATTTGGGCCCCAAACTTTCCTG
49707332 AAATTACATTT
1 AAATTACATTT
49707343 TTGCCCCAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (29 bp):
AAATTACATTTGGGCCCCAAACTTTCCTG
Found at i:49707338 original size:29 final size:29
Alignment explanation
Indices: 49707273--49707350 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
49707263 AATATTTTGT
*
49707273 AAATTACATTTGGGCCCCTAAACTTTCTAG
1 AAATTACATTTTGGCCCC-AAACTTTCTAG
* *
49707303 AAATTACATTTTGGCCCCATATTTTCCT-G
1 AAATTACATTTTGGCCCCAAACTTT-CTAG
*
49707332 AAATTACATTTTTGCCCCA
1 AAATTACATTTTGGCCCCA
49707351 GAAACTTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 24 0.56
30 19 0.44
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.37
Consensus pattern (29 bp):
AAATTACATTTTGGCCCCAAACTTTCTAG
Found at i:49707534 original size:23 final size:24
Alignment explanation
Indices: 49707490--49707534 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
49707480 GAAGACAAGG
*
49707490 AAAAGAAGACAAATTTGAAAGATT
1 AAAAGAAGACAAAATTGAAAGATT
49707514 AAAAGAAGA-AAAATTGAAAGA
1 AAAAGAAGACAAAATTGAAAGA
49707535 AAATAGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAAGAAGACAAAATTGAAAGATT
Found at i:49708094 original size:25 final size:25
Alignment explanation
Indices: 49708047--49708094 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
49708037 GGGGCCGAAC
* **
49708047 GAAAAAGAAGAGAAAAAGCAAAGTA
1 GAAAAAAAAGAGAAAAAAAAAAGTA
*
49708072 GAAAAAAAATAGAAAAAAAAAAG
1 GAAAAAAAAGAGAAAAAAAAAAG
49708095 AAAGGAGCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (25 bp):
GAAAAAAAAGAGAAAAAAAAAAGTA
Found at i:49708792 original size:17 final size:17
Alignment explanation
Indices: 49708770--49708826 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
49708760 GTACTTTAAA
*
49708770 AAAAATAATCGTGTTTC
1 AAAAATTATCGTGTTTC
* *
49708787 AAAAATTTTCATGTTCTC
1 AAAAATTATCGTGTT-TC
* *
49708805 AAAATTTCTCGTGTTTC
1 AAAAATTATCGTGTTTC
49708822 AAAAA
1 AAAAA
49708827 AATAATAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (17 bp):
AAAAATTATCGTGTTTC
Found at i:49708902 original size:17 final size:17
Alignment explanation
Indices: 49708880--49709297 Score: 101
Period size: 17 Copynumber: 23.8 Consensus size: 17
49708870 AAGGAAACTT
49708880 CGTGTTTCAAAAATTTC
1 CGTGTTTCAAAAATTTC
*
49708897 CGTGTTTTTAAAAAAATTTC
1 CGTG--TTT-CAAAAATTTC
*
49708917 CGTGTTTCAAAAA-ATC
1 CGTGTTTCAAAAATTTC
*
49708933 CTGTGTTTTCAAAAATTTT
1 C-GTG-TTTCAAAAATTTC
* * *
49708952 CGTGTTTTAGAAATTTT
1 CGTGTTTCAAAAATTTC
* ***
49708969 CGTTTTTTTTTTAAATTT-
1 CG--TGTTTCAAAAATTTC
49708987 -GTGTTTTC-AAAATTTC
1 CGTG-TTTCAAAAATTTC
* * **
49709003 TGGTGATAAAAAAATTT-
1 -CGTGTTTCAAAAATTTC
*
49709020 CGTGTTTCAAAAA-TCC
1 CGTGTTTCAAAAATTTC
* *
49709036 TCATGTTTTCTAAAAA-TGC
1 -CGTG-TTTC-AAAAATTTC
* *
49709055 CAGTGTTTTAAAAATTTT
1 C-GTGTTTCAAAAATTTC
49709073 CGTGTTTTCCAAAAATTT-
1 CGTG-TTT-CAAAAATTTC
*
49709091 TGTGTTTCAAAAAAATTT-
1 CGTGTTTC--AAAAATTTC
* *
49709109 CATGTTTTCAAAAAATTC
1 CGTG-TTTCAAAAATTTC
49709127 TCGTGTTTTCAAAAAATTT-
1 -CGTG-TTTC-AAAAATTTC
*
49709146 CGTGTTTTCAACAA-TTC
1 CGTG-TTTCAAAAATTTC
** * *
49709163 TCGCATTTCACAAATTTT
1 -CGTGTTTCAAAAATTTC
** *
49709181 CGTG-TT-ATAATTTTTT
1 CGTGTTTCA-AAAATTTC
* * * **
49709197 TGTCTTTTTAAAAAAAATC
1 CG--TGTTTCAAAAATTTC
49709216 TCGTGTTTCAAAAATTGT-
1 -CGTGTTTCAAAAATT-TC
* * *
49709234 CTTGTTTTAAAAATTTT
1 CGTGTTTCAAAAATTTC
*
49709251 CGTGTTTCTAAAATTTC
1 CGTGTTTCAAAAATTTC
*
49709268 CGTGTTTTAAAAA-TTC
1 CGTGTTTCAAAAATTTC
*
49709284 TCGTGTTTTAAAAA
1 -CGTGTTTCAAAAA
49709298 AAAATTCTCG
Statistics
Matches: 297, Mismatches: 65, Indels: 78
0.68 0.15 0.18
Matches are distributed among these distances:
15 9 0.03
16 30 0.10
17 111 0.37
18 74 0.25
19 51 0.17
20 22 0.07
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTC
Found at i:49708928 original size:19 final size:19
Alignment explanation
Indices: 49708880--49708930 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
49708870 AAGGAAACTT
49708880 CGTGTTTC--AAAAATTTC
1 CGTGTTTCAAAAAAATTTC
*
49708897 CGTGTTTTTAAAAAAATTTC
1 CGTG-TTTCAAAAAAATTTC
49708917 CGTGTTTCAAAAAA
1 CGTGTTTCAAAAAA
49708931 TCCTGTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 9 0.31
20 13 0.45
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (19 bp):
CGTGTTTCAAAAAAATTTC
Found at i:49709088 original size:19 final size:19
Alignment explanation
Indices: 49709010--49709298 Score: 138
Period size: 17 Copynumber: 16.3 Consensus size: 19
49709000 TTCTGGTGAT
*
49709010 AAAAAAATTTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
** *
49709028 -AAAAATCCTCATGTTTTC
1 AAAAAATTTTCGTGTTTTC
* **
49709046 TAAAAA-TGCCAGTGTTTT-
1 AAAAAATTTTC-GTGTTTTC
49709064 -AAAAATTTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
49709082 CAAAAATTTT-GTG-TTTC
1 AAAAAATTTTCGTGTTTTC
* *
49709099 AAAAAAATTTCATGTTTTC
1 AAAAAATTTTCGTGTTTTC
*
49709118 AAAAAATTCTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
49709137 AAAAAA-TTTCGTGTTTTC
1 AAAAAATTTTCGTGTTTTC
* * **
49709155 -AACAATTCTCG-CATTTC
1 AAAAAATTTTCGTGTTTTC
*
49709172 -ACAAATTTTCGTG--TT-
1 AAAAAATTTTCGTGTTTTC
* ** * * *
49709187 ATAATTTTTTTGTCTTTTTA
1 AAAAAATTTTCGT-GTTTTC
* *
49709207 AAAAAAATCTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
* *
49709225 -AAAAATTGTCTTGTTTT-
1 AAAAAATTTTCGTGTTTTC
49709242 -AAAAATTTTCGTG-TTTC
1 AAAAAATTTTCGTGTTTTC
* *
49709259 -TAAAATTTCCGTGTTTT-
1 AAAAAATTTTCGTGTTTTC
*
49709276 -AAAAATTCTCGTGTTTT-
1 AAAAAATTTTCGTGTTTTC
49709293 AAAAAA
1 AAAAAA
49709299 AAATTCTCGT
Statistics
Matches: 203, Mismatches: 49, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
16 12 0.06
17 95 0.47
18 41 0.20
19 48 0.24
20 7 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (19 bp):
AAAAAATTTTCGTGTTTTC
Found at i:49709153 original size:18 final size:18
Alignment explanation
Indices: 49708878--49709298 Score: 190
Period size: 18 Copynumber: 23.9 Consensus size: 18
49708868 TAAAGGAAAC
49708878 TTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
*
49708894 TTCCGTGTTTTTAAAAAAAT
1 TT-CGTG-TTTTCAAAAAAT
49708914 TTCCGTG-TTTCAAAAAA-
1 TT-CGTGTTTTCAAAAAAT
* *
49708931 TCCTGTGTTTTCAAAAATT
1 TTC-GTGTTTTCAAAAAAT
* *
49708950 TTCGTGTTTT-AGAAATT
1 TTCGTGTTTTCAAAAAAT
* ****
49708967 TTCGTTTTTTTTTTAAAT
1 TTCGTGTTTTCAAAAAAT
49708985 TT-GTGTTTTC--AAAAT
1 TTCGTGTTTTCAAAAAAT
** *
49709000 TTC-TGGTGATAAAAAAAT
1 TTCGT-GTTTTCAAAAAAT
49709018 TTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
* * *
49709034 CCTCATGTTTTCTAAAAAT
1 -TTCGTGTTTTCAAAAAAT
** *
49709053 GCCAGTGTTTT-AAAAATT
1 TTC-GTGTTTTCAAAAAAT
*
49709071 TTCGTGTTTTCCAAAAAT
1 TTCGTGTTTTCAAAAAAT
*
49709089 TTTGTG-TTTCAAAAAAAT
1 TTCGTGTTTTC-AAAAAAT
*
49709107 TTCATGTTTTCAAAAAAT
1 TTCGTGTTTTCAAAAAAT
49709125 TCTCGTGTTTTCAAAAAAT
1 T-TCGTGTTTTCAAAAAAT
*
49709144 TTCGTGTTTTC-AACAAT
1 TTCGTGTTTTCAAAAAAT
** * *
49709161 TCTCG-CATTTCACAAATT
1 T-TCGTGTTTTCAAAAAAT
* ***
49709179 TTCGTGTTAT--AATTTT
1 TTCGTGTTTTCAAAAAAT
* * *
49709195 TTTGTCTTTTTAAAAAAAAT
1 TTCGT-GTTTT-CAAAAAAT
*
49709215 CTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
* *
49709231 TGTCTTGTTTT-AAAAATT
1 T-TCGTGTTTTCAAAAAAT
*
49709249 TTCGTG-TTTC-TAAAAT
1 TTCGTGTTTTCAAAAAAT
49709265 TTCCGTGTTTT--AAAAAT
1 TT-CGTGTTTTCAAAAAAT
49709282 TCTCGTGTTTT-AAAAAA
1 T-TCGTGTTTTCAAAAAA
49709299 AAATTCTCGT
Statistics
Matches: 304, Mismatches: 65, Indels: 70
0.69 0.15 0.16
Matches are distributed among these distances:
15 7 0.02
16 34 0.11
17 87 0.29
18 118 0.39
19 39 0.13
20 19 0.06
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
TTCGTGTTTTCAAAAAAT
Found at i:49709301 original size:21 final size:20
Alignment explanation
Indices: 49709276--49709320 Score: 81
Period size: 21 Copynumber: 2.2 Consensus size: 20
49709266 TCCGTGTTTT
49709276 AAAAATTCTCGTGTTTTAAAA
1 AAAAATTCTCGTG-TTTAAAA
49709297 AAAAATTCTCGTGTTTAAAA
1 AAAAATTCTCGTGTTTAAAA
49709317 AAAA
1 AAAA
49709321 CTTTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (20 bp):
AAAAATTCTCGTGTTTAAAA
Found at i:49713067 original size:9 final size:9
Alignment explanation
Indices: 49713055--49713079 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49713045 TGAACTCAAT
49713055 GAAAGAATG
1 GAAAGAATG
49713064 GAAAGAATG
1 GAAAGAATG
49713073 GAAAGAA
1 GAAAGAA
49713080 CCCAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (9 bp):
GAAAGAATG
Found at i:49721889 original size:25 final size:25
Alignment explanation
Indices: 49721861--49721919 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
49721851 TATTATGCCT
*
49721861 AAAAAAACAAAAAAAAAAG-AAACAG
1 AAAAAAA-AAAAAAAAAAGTAAAAAG
*
49721886 AAAAAAAAACAAAAAAAGTAAAAAG
1 AAAAAAAAAAAAAAAAAGTAAAAAG
*
49721911 AAAGAAAAA
1 AAAAAAAAA
49721920 TCAAGATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAAAAAAAAGTAAAAAG
Found at i:49721908 original size:19 final size:17
Alignment explanation
Indices: 49721861--49721919 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
49721851 TATTATGCCT
*
49721861 AAAAAAACAAAAAAAAA
1 AAAAAAAGAAAAAAAAA
* *
49721878 AGAAACAGAAAAAAAAA
1 AAAAAAAGAAAAAAAAA
49721895 CAAAAAAAGTAAAAAGAAAGA
1 -AAAAAAAG-AAAAA-AAA-A
49721916 AAAA
1 AAAA
49721920 TCAAGATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 14 0.42
18 6 0.18
19 5 0.15
20 7 0.21
21 1 0.03
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAA
Found at i:49721914 original size:11 final size:9
Alignment explanation
Indices: 49721861--49721919 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
49721851 TATTATGCCT
*
49721861 AAAAAAACA
1 AAAAAAAGA
49721870 AAAAAAA-A
1 AAAAAAAGA
* *
49721878 AGAAACAGA
1 AAAAAAAGA
49721887 AAAAAAA-A
1 AAAAAAAGA
49721895 CAAAAAAAGTA
1 -AAAAAAAG-A
49721906 AAAAGAAAGA
1 AAAA-AAAGA
49721916 AAAA
1 AAAA
49721920 TCAAGATGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.17
9 20 0.49
10 9 0.22
11 5 0.12
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:49722950 original size:80 final size:79
Alignment explanation
Indices: 49722797--49723108 Score: 348
Period size: 80 Copynumber: 4.0 Consensus size: 79
49722787 TTTTTTCAAA
* * * *
49722797 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCATCCTGAGGTATTTTTCAATTTCTATT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA-CCCGAGGTATTTTTAAATTTCTATT
49722862 TTTCAAAAAAAAATC
65 TTTCAAAAAAAAATC
* * * *
49722877 AACTTATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGATGTA-TTTTAAATTTCTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAC-CCGAGGTATTTTTAAATTTCTATT
49722941 TTTC--AAAAAAATC
65 TTTCAAAAAAAAATC
* * * * *
49722954 AACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCAC-GCTGAGGTA-TTTTCAATTTCTATTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACCCGAGGTATTTTTAAATTTCTATTT
49723017 TTCAAAAAAAAAATC
66 TTC-AAAAAAAAATC
* * * * * * * * *
49723032 AACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTA-TCCCGAGGTATTTTTCAATTTTTTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACCCGAGGTATTTTT-AAATTTCTATT
49723096 TTTCAAAAAAAAA
65 TTTCAAAAAAAAA
49723109 GGGAAGCTCA
Statistics
Matches: 195, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
75 23 0.12
77 43 0.22
78 46 0.24
79 31 0.16
80 52 0.27
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (79 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACCCGAGGTATTTTTAAATTTCTATTT
TTCAAAAAAAAATC
Found at i:49723077 original size:78 final size:79
Alignment explanation
Indices: 49722797--49723108 Score: 368
Period size: 78 Copynumber: 4.0 Consensus size: 79
49722787 TTTTTTCAAA
* *
49722797 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCATC-CTGAGGTATTTTTCAATTTCTAT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CATCGCCGAGGTATTTTTCAATTTCTAT
49722861 TTTTCAAAAAAAAATC
64 TTTTCAAAAAAAAATC
* * * * * *
49722877 AACTTATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGATGTA-TTTTAAATTTCTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA-TCGCCGAGGTATTTTTCAATTTCTATT
49722941 TTTC--AAAAAAATC
65 TTTCAAAAAAAAATC
* * *
49722954 AACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCA-CGCTGAGGTA-TTTTCAATTTCTATTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATCGCCGAGGTATTTTTCAATTTCTATTT
49723017 TTCAAAAAAAAAATC
66 TTC-AAAAAAAAATC
* * * * * * *
49723032 AACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTATC-CCGAGGTATTTTTCAATTTTTTGTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATCGCCGAGGTATTTTTCAA-TTTCTATT
49723096 TTTCAAAAAAAAA
65 TTTCAAAAAAAAA
49723109 GGGAAGCTCA
Statistics
Matches: 198, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
75 25 0.13
77 42 0.21
78 48 0.24
79 35 0.18
80 48 0.24
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (79 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATCGCCGAGGTATTTTTCAATTTCTATTT
TTCAAAAAAAAATC
Found at i:49723130 original size:96 final size:94
Alignment explanation
Indices: 49723022--49723200 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 94
49723012 TATTTTTCAA
* * * * * *
49723022 AAAAAAAATCAACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTATC-CCGAGGTATTTTTCA
1 AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCA-CGCCGAGGTA-TTTT-A
* *
49723086 ATTTTTTGTTTTTCAAAAAAAAAGGGAAGCTC
63 AATTTCTGTTTTTCAAAAAAAAAGGGAAGCTC
* *
49723118 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAAAT
1 AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCACGCCGAGGTATTTTAAAT
49723183 TTCTGTTTTTCAAAAAAA
66 TTCTGTTTTTCAAAAAAA
49723201 TCAACTCATA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 20 0.28
95 5 0.07
96 47 0.65
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (94 bp):
AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCACGCCGAGGTATTTTAAAT
TTCTGTTTTTCAAAAAAAAAGGGAAGCTC
Found at i:49723260 original size:77 final size:75
Alignment explanation
Indices: 49723119--49723306 Score: 317
Period size: 75 Copynumber: 2.5 Consensus size: 75
49723109 GGGAAGCTCA
* *
49723119 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTAAATT
49723184 TCTGTTTTTC
66 TCTGTTTTTC
49723194 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTAAA
49723259 TTTCTGTTTTTC
64 TTTCTGTTTTTC
*
49723271 --AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
49723307 CTGAGTCCTA
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
75 77 0.71
77 31 0.29
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTAAATT
TCTGTTTTTC
Found at i:49723325 original size:75 final size:74
Alignment explanation
Indices: 49723121--49723361 Score: 315
Period size: 75 Copynumber: 3.2 Consensus size: 74
49723111 GAAGCTCAAA
* *
49723121 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGT-CACGCTGAGGTATTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTAAATTT
49723185 CTGTTTTTC
66 CTGTTTTTC
49723194 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTAAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTAAA
49723259 TTTCTGTTTTTC
63 TTTCTGTTTTTC
* * * * * *
49723271 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC-CTGAGTCCTATGCCGAGGTGTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCC-ACGCTGAGGT-ATTTTAAA
*
49723335 TTTCTATTTTTC
63 TTTCTGTTTTTC
**
49723347 AAAGTTCAACTCATA
1 AAAAATCAACTCATA
49723362 ATCTGAAAAG
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
74 2 0.01
75 87 0.58
76 29 0.19
77 31 0.21
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTAAATTT
CTGTTTTTC
Found at i:49723735 original size:30 final size:29
Alignment explanation
Indices: 49723696--49723871 Score: 130
Period size: 30 Copynumber: 5.9 Consensus size: 29
49723686 CAAAAAAATA
49723696 TAAATTACATTTTGGCCCCTAAACTTTTC
1 TAAATTACATTTTGGCCCCTAAACTTTTC
* **
49723725 CAAATTTACATTTTAACCCCT-AACATTTTC
1 TAAA-TTACATTTTGGCCCCTAAAC-TTTTC
* * * *
49723755 TAAACTTGCATCTTGACCCCTAATA-TTTTG
1 TAAA-TTACATTTTGGCCCCTAA-ACTTTTC
*
49723785 TAAATTACATTTGGGCCCCTAAAC-TTTC
1 TAAATTACATTTTGGCCCCTAAACTTTTC
49723813 TAAAAATTACATTTTGG-CCC-AATA-TTTTC
1 T--AAATTACATTTTGGCCCCTAA-ACTTTTC
* *
49723842 TTGAAATTACATTTTTGCCCCAGAAACTTT
1 -T-AAATTACATTTTGGCCCC-TAAACTTT
49723872 GCGCCCTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
28 7 0.06
29 41 0.35
30 60 0.52
31 2 0.02
32 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (29 bp):
TAAATTACATTTTGGCCCCTAAACTTTTC
Found at i:49724047 original size:23 final size:24
Alignment explanation
Indices: 49724003--49724047 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
49723993 GAAGACAAGG
*
49724003 AAAAGAAGACAAATTTGAAAGATT
1 AAAAGAAGACAAAATTGAAAGATT
49724027 AAAAGAAGA-AAAATTGAAAGA
1 AAAAGAAGACAAAATTGAAAGA
49724048 GAATAGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAAGAAGACAAAATTGAAAGATT
Found at i:49724607 original size:24 final size:24
Alignment explanation
Indices: 49724573--49724635 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
49724563 ATAAGAAGAG
49724573 AAAAAGCAAAGTAGAAAAAAAGAAA
1 AAAAAG-AAAGTAGAAAAAAAGAAA
* * **
49724598 AAAAAGAAAGGAGCAAAGCAGAAA
1 AAAAAGAAAGTAGAAAAAAAGAAA
*
49724622 AAAATGAAA-TAGAA
1 AAAAAGAAAGTAGAA
49724636 GCAGGCCATA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 3 0.10
24 22 0.71
25 6 0.19
ACGTcount: A:0.71, C:0.05, G:0.19, T:0.05
Consensus pattern (24 bp):
AAAAAGAAAGTAGAAAAAAAGAAA
Found at i:49725324 original size:18 final size:18
Alignment explanation
Indices: 49725297--49725342 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
49725287 ATAATAATCG
49725297 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
*
49725314 TGTTCTC-AAAATTTCTCG
1 TGTT-TCAAAAATTTCTCA
49725332 TGTTTCAAAAA
1 TGTTTCAAAAA
49725343 AATAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:49725410 original size:17 final size:18
Alignment explanation
Indices: 49725384--49725696 Score: 163
Period size: 18 Copynumber: 17.3 Consensus size: 18
49725374 TTAAAAAAAG
49725384 AAAA-TTCCGTG-TTTCA
1 AAAATTTCCGTGTTTTCA
*
49725400 AAAATTTCCGTGTTTTTAAA
1 AAAATTTCCGTG-TTTT-CA
49725420 AAAATTTCCGTG-TTTCA
1 AAAATTTCCGTGTTTTCA
*
49725437 AAAA-ATCCTGTGTTTTCA
1 AAAATTTCC-GTGTTTTCA
*
49725455 AAAATTTTCGTGTTTT-A
1 AAAATTTCCGTGTTTTCA
* *
49725472 GAAATTTTCGTGTTTTTTTCTA
1 AAAATTTCCGTG---TTTTC-A
*
49725494 AAAA-TT-CATGTTTTC-
1 AAAATTTCCGTGTTTTCA
* ** *
49725509 AAAATTTCTG-GTGATAA
1 AAAATTTCCGTGTTTTCA
* *
49725526 AAAAATT-CATGTTTTCAAA
1 AAAATTTCCGTGTTTTC--A
49725545 GAAAATTT-CGTG-TTTCA
1 -AAAATTTCCGTGTTTTCA
*
49725562 AAAA-TCCTCGTGTTTTCA
1 AAAATTTC-CGTGTTTTCA
* *
49725580 AAAAATGCCGGTGTTTT-A
1 AAAATTTCC-GTGTTTTCA
*
49725598 AAAATTTTCGTGTTTTCTA
1 AAAATTTCCGTGTTTTC-A
**
49725617 AAAATTT-TTTGTGTTTCAAA
1 AAAATTTCCGTGT-TTTC--A
*
49725637 AAAATTT-CATGTTTTCA
1 AAAATTTCCGTGTTTTCA
*
49725654 AAACATTCCCGTGTTTTCA
1 AAA-ATTTCCGTGTTTTCA
*
49725673 AAAATTTTCGTGTTTTCA
1 AAAATTTCCGTGTTTTCA
*
49725691 ACAATT
1 AAAATT
49725697 CTCGCATTTC
Statistics
Matches: 231, Mismatches: 36, Indels: 58
0.71 0.11 0.18
Matches are distributed among these distances:
15 5 0.02
16 16 0.07
17 57 0.25
18 60 0.26
19 47 0.20
20 40 0.17
21 2 0.01
22 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (18 bp):
AAAATTTCCGTGTTTTCA
Found at i:49725436 original size:37 final size:36
Alignment explanation
Indices: 49725384--49725488 Score: 117
Period size: 35 Copynumber: 2.9 Consensus size: 36
49725374 TTAAAAAAAG
49725384 AAAA-TTCCGTGTTTCAAAAATTTCCGTGTTTTTAAA
1 AAAATTTCCGTGTTTCAAAAATTTCCGTGTTTTT-AA
* *
49725420 AAAATTTCCGTGTTTCAAAAA-ATCC-TGTGTTTTCA
1 AAAATTTCCGTGTTTCAAAAATTTCCGTGT-TTTTAA
* * * *
49725455 AAAATTTTCGTGTTTTAGAAATTTTCGTGTTTTT
1 AAAATTTCCGTGTTTCAAAAATTTCCGTGTTTTT
49725489 TTCTAAAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
35 22 0.38
36 17 0.29
37 19 0.33
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (36 bp):
AAAATTTCCGTGTTTCAAAAATTTCCGTGTTTTTAA
Found at i:49725440 original size:20 final size:20
Alignment explanation
Indices: 49725378--49725441 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
49725368 GTTTTTTTAA
*
49725378 AAAAAGAAAATTCCGTGTTTC
1 AAAAA-AAATTTCCGTGTTTC
*
49725399 ---AAAAATTTCCGTGTTTT
1 AAAAAAAATTTCCGTGTTTC
*
49725416 TAAAAAAATTTCCGTGTTTC
1 AAAAAAAATTTCCGTGTTTC
49725436 AAAAAA
1 AAAAAA
49725442 TCCTGTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 13 0.36
18 2 0.06
20 21 0.58
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAAAAAATTTCCGTGTTTC
Found at i:49725668 original size:37 final size:36
Alignment explanation
Indices: 49725384--49725723 Score: 148
Period size: 37 Copynumber: 9.4 Consensus size: 36
49725374 TTAAAAAAAG
* * *
49725384 AAAATTCCGTG-TTTC-AAAAATTTCCGTGTTTTTAAA
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTG--TTTCAA
*
49725420 AAAATTTCCGTG-TTTCAAAAAA-TCCTGTGTTTTCAA
1 AAAATTT-CGTGTTTTCAAAAAATTCCCGTG-TTTCAA
* * ** *
49725456 AAATTTTCGTGTTTT--AGAAATTTTCGTGTTTTTTTCTA
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTG----TTTCAA
* * ** *
49725494 AAAA-TTCATGTTTTC-AAAATTTCTGGTG-AT-AA
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
* * *
49725526 AAAAATTCATGTTTTCAAAGAAAATT-TCGTGTTTC-A
1 AAAATTTCGTGTTTTC-AA-AAAATTCCCGTGTTTCAA
* * * *
49725562 AAAATCCTCGTGTTTTCAAAAAATGCCGGTGTTTTAA
1 AAAAT-TTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
* * ***
49725599 AAATTTTCGTGTTTTCTAAAAATTTTTTGTGTTTCAAA
1 AAAATTTCGTGTTTTC-AAAAAATTCCCGTGTTTC-AA
* *
49725637 AAAATTTCATGTTTTCAAAACATTCCCGTGTTTTCAA
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTG-TTTCAA
* * * ** *
49725674 AAATTTTCGTGTTTTC-AACAATTCTCGCATTTCAC
1 AAAATTTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
*
49725709 AAATTTTCGTGTTTT
1 AAAATTTCGTGTTTT
49725724 AATTTTTTTT
Statistics
Matches: 233, Mismatches: 51, Indels: 41
0.72 0.16 0.13
Matches are distributed among these distances:
32 5 0.02
33 12 0.05
34 4 0.02
35 38 0.16
36 58 0.25
37 73 0.31
38 43 0.18
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (36 bp):
AAAATTTCGTGTTTTCAAAAAATTCCCGTGTTTCAA
Found at i:49725688 original size:18 final size:18
Alignment explanation
Indices: 49725391--49725861 Score: 215
Period size: 17 Copynumber: 26.8 Consensus size: 18
49725381 AAGAAAATTC
*
49725391 CGTG-TTTCAAAAATTTC
1 CGTGTTTTCAAAAATTTT
* *
49725408 CGTGTTTTTAAAAAAATTTC
1 CGTG-TTTT-CAAAAATTTT
* *
49725428 CGTG-TTTCAAAAA-ATC
1 CGTGTTTTCAAAAATTTT
49725444 CTGTGTTTTCAAAAATTTT
1 C-GTGTTTTCAAAAATTTT
*
49725463 CGTGTTTT-AGAAATTTT
1 CGTGTTTTCAAAAATTTT
49725480 CGTGTTTTTTTCTAAAAA--TT
1 CGTG---TTTTC-AAAAATTTT
*
49725500 CATGTTTTC-AAAA-TTT
1 CGTGTTTTCAAAAATTTT
** **
49725516 C-TGGTGAT-AAAAAAATT
1 CGT-GTTTTCAAAAATTTT
* *
49725533 CATGTTTTCAAAGAAAATTT
1 CGTGTTTTC-AA-AAATTTT
**
49725553 CGTG-TTTCAAAAATCCT
1 CGTGTTTTCAAAAATTTT
* **
49725570 CGTGTTTTCAAAAAATGC
1 CGTGTTTTCAAAAATTTT
49725588 CGGTGTTTT-AAAAATTTT
1 C-GTGTTTTCAAAAATTTT
49725606 CGTGTTTTCTAAAAATTTT
1 CGTGTTTTC-AAAAATTTT
* *
49725625 -TTGTGTTTCAAAAAAATTT
1 CGTGT-TTTC-AAAAATTTT
* **
49725644 CATGTTTTCAAAACATTCC
1 CGTGTTTTCAAAA-ATTTT
49725663 CGTGTTTTCAAAAATTTT
1 CGTGTTTTCAAAAATTTT
* *
49725681 CGTGTTTTCAACAATTCT
1 CGTGTTTTCAAAAATTTT
** *
49725699 CG-CATTTCACAAATTTT
1 CGTGTTTTCAAAAATTTT
49725716 CGTGTTTT----AA-TTT
1 CGTGTTTTCAAAAATTTT
*
49725729 --T-TTTTCACAAATTTT
1 CGTGTTTTCAAAAATTTT
***
49725744 CGTGTTTT-AATTTTTTT
1 CGTGTTTTCAAAAATTTT
* * * * *
49725761 TGTCTTTTTAAAAAAAATCT
1 CGT-GTTTT-CAAAAATTTT
*
49725781 CGTG-TTTCAAAAATTGT
1 CGTGTTTTCAAAAATTTT
*
49725798 CTTGTTTT-AAAAATTTT
1 CGTGTTTTCAAAAATTTT
* *
49725815 CGTG-TTTCTAAAATTTC
1 CGTGTTTTCAAAAATTTT
*
49725832 CGTGTTTT-AAAAATTCT
1 CGTGTTTTCAAAAATTTT
49725849 CGTGTTTT-AAAAA
1 CGTGTTTTCAAAAA
49725862 AAATTCTCGT
Statistics
Matches: 345, Mismatches: 68, Indels: 82
0.70 0.14 0.17
Matches are distributed among these distances:
10 4 0.01
11 1 0.00
13 3 0.01
14 4 0.01
15 8 0.02
16 16 0.05
17 121 0.35
18 87 0.25
19 57 0.17
20 40 0.12
22 4 0.01
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTT
Found at i:49725735 original size:28 final size:28
Alignment explanation
Indices: 49725703--49725761 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
49725693 AATTCTCGCA
49725703 TTTCACAAATTTTCGTGTTTTAATTTTT
1 TTTCACAAATTTTCGTGTTTTAATTTTT
49725731 TTTCACAAATTTTCGTGTTTTAATTTTT
1 TTTCACAAATTTTCGTGTTTTAATTTTT
49725759 TTT
1 TTT
49725762 GTCTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (28 bp):
TTTCACAAATTTTCGTGTTTTAATTTTT
Found at i:49725879 original size:17 final size:17
Alignment explanation
Indices: 49725771--49725881 Score: 98
Period size: 17 Copynumber: 6.4 Consensus size: 17
49725761 TGTCTTTTTA
*
49725771 AAAAAAATCTCGTGTTT
1 AAAAAATTCTCGTGTTT
* * *
49725788 CAAAAATTGTCTTGTTT
1 AAAAAATTCTCGTGTTT
* *
49725805 TAAAAATTTTCGTGTTT
1 AAAAAATTCTCGTGTTT
**
49725822 CTAAAATT-TCCGTGTTT
1 AAAAAATTCT-CGTGTTT
*
49725839 TAAAAATTCTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
49725857 AAAAAAAATTCTCGTGTTT
1 --AAAAAATTCTCGTGTTT
49725876 AAAAAA
1 AAAAAA
49725882 AACCTTTTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
16 1 0.01
17 56 0.73
18 4 0.05
19 3 0.04
20 13 0.17
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (17 bp):
AAAAAATTCTCGTGTTT
Found at i:49731119 original size:16 final size:17
Alignment explanation
Indices: 49731098--49731130 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
49731088 TTTTTTCAAT
49731098 TTTATTTTT-ATTTTTA
1 TTTATTTTTAATTTTTA
49731114 TTTATTTTTAATTTTTA
1 TTTATTTTTAATTTTTA
49731131 AAAGTTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTAATTTTTA
Found at i:49732760 original size:41 final size:40
Alignment explanation
Indices: 49732715--49732803 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
49732705 AGCGGTACTT
*
49732715 TTAGCGG-AGTTTGGACAAAAAACGCCAC-TAATAATCGAGCA
1 TTAGCGGCA-TTT-GACAAAAAACGCCACAAAAT-ATCGAGCA
* * *
49732756 TTAGCGGCATTTTACGAAAAACGCCGCAAAATATCGAGCA
1 TTAGCGGCATTTGACAAAAAACGCCACAAAATATCGAGCA
49732796 TTAGCGGC
1 TTAGCGGC
49732804 GCTACATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 28 0.67
41 13 0.31
42 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (40 bp):
TTAGCGGCATTTGACAAAAAACGCCACAAAATATCGAGCA
Found at i:49733148 original size:114 final size:113
Alignment explanation
Indices: 49732842--49733188 Score: 541
Period size: 113 Copynumber: 3.1 Consensus size: 113
49732832 AGCATTAGCA
*
49732842 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * * *
49732907 ATTAGCGGCGGTTTTTCCCAAGCGCCACTAAAACTCCGTTCTTCAGCG
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
* *
49732955 GCGTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * *
49733020 ATTAGTGGCAGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCT
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
*
49733068 GCGTTTTACAAAAAGCGTCGCAAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
1 GCGTTTTACAAAAAGCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * * *
49733133 CACTAGTGGCGGTTTTTGCCCAAACGCCGCTAATAATCCGTTCTTCAACG
65 CATTAGTGGCGG-TTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
49733183 GCGTTT
1 GCGTTT
49733189 GGCGTTAAGC
Statistics
Matches: 212, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
113 122 0.58
114 52 0.25
115 38 0.18
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (113 bp):
GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
Found at i:49733359 original size:41 final size:41
Alignment explanation
Indices: 49733281--49733390 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 41
49733271 TTTAATAAAC
* * * * *
49733281 CGCCGCTGATGCTCCGCTCTAAAGCGGCGTTTATGGAG-AG
1 CGCCGCTAATGTTCCGGTCTATAGCGGCGTTCATGGAGAAG
*
49733321 TCGCCGCTAATGTTCCGGTCTATAGCGGCGTTCCTGGAGAAG
1 -CGCCGCTAATGTTCCGGTCTATAGCGGCGTTCATGGAGAAG
* * *
49733363 CGCCGGTAACTCTT-GGGTCTATAGCGGC
1 CGCCGCTAA-TGTTCCGGTCTATAGCGGC
49733391 ATTTGTGTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
41 53 0.91
42 5 0.09
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (41 bp):
CGCCGCTAATGTTCCGGTCTATAGCGGCGTTCATGGAGAAG
Found at i:49735894 original size:16 final size:16
Alignment explanation
Indices: 49735870--49735900 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49735860 ATTTTCCCTA
49735870 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
49735886 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
49735901 CTCATAAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:49737072 original size:27 final size:27
Alignment explanation
Indices: 49737041--49737096 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
49737031 TTTAATAGAT
* *
49737041 AATTTTATTTGTATTAACAATTTTTAA
1 AATTTTAATTATATTAACAATTTTTAA
49737068 AATTTTAATTATATTAACAATTTTTAA
1 AATTTTAATTATATTAACAATTTTTAA
49737095 AA
1 AA
49737097 ATTACATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
AATTTTAATTATATTAACAATTTTTAA
Found at i:49737105 original size:27 final size:27
Alignment explanation
Indices: 49737052--49737111 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
49737042 ATTTTATTTG
*
49737052 TATTAACAATTTTTAAAATTTTAATTA
1 TATTAACAATTTTTAAAATATTAATTA
49737079 TATTAACAATTTTTAAAA-ATTACATTA
1 TATTAACAATTTTTAAAATATTA-ATTA
*
49737106 TTTTAA
1 TATTAA
49737112 TAAAAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTAACAATTTTTAAAATATTAATTA
Found at i:49737506 original size:14 final size:14
Alignment explanation
Indices: 49737484--49737523 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
49737474 TATGACACCA
*
49737484 AATATATTTTAAAC
1 AATAAATTTTAAAC
49737498 AATAAATTTTAAAC
1 AATAAATTTTAAAC
* *
49737512 ATTAAAGTTTAA
1 AATAAATTTTAA
49737524 TTTTAAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (14 bp):
AATAAATTTTAAAC
Found at i:49743615 original size:87 final size:87
Alignment explanation
Indices: 49743466--49743624 Score: 225
Period size: 87 Copynumber: 1.8 Consensus size: 87
49743456 GGCAACATCA
* *
49743466 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAGC
1 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATACGGCAGC
49743531 GAGAGAAACAGAGACAGCAGCG
66 GAGAGAAACAGAGACAGCAGCG
* * *
49743553 AGAGAAGCTGAGGTTCAACGAAAG-TATG-AGCAACTGCAGC-AGCAGCTTAAAGAAGATACGGC
1 AGAGAAGCTGAGGTTCAA-AAAAGATATGAAG-AACTCCAGCTA-CAACTTAAAGAAGATACGGC
49743615 AGCGAGAGAA
63 AGCGAGAGAA
49743625 GCAGCGGCTG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
86 3 0.05
87 57 0.89
88 4 0.06
ACGTcount: A:0.42, C:0.18, G:0.29, T:0.12
Consensus pattern (87 bp):
AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATACGGCAGC
GAGAGAAACAGAGACAGCAGCG
Found at i:49743646 original size:21 final size:21
Alignment explanation
Indices: 49743613--49743671 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
49743603 AGAAGATACG
* *
49743613 GCAGCGAGAGAAGCAGCGGCT
1 GCAGCGAGGGAAGCAGAGGCT
* *
49743634 GCAGTGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
49743655 GCAGCGAGGGAAGCAGA
1 GCAGCGAGGGAAGCAGA
49743672 ACAGCATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.17, G:0.46, T:0.07
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:49743898 original size:14 final size:14
Alignment explanation
Indices: 49743879--49743908 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
49743869 TTATATAGAT
49743879 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
49743893 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
49743907 TT
1 TT
49743909 TCTTCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (14 bp):
TTGGTTAGATTTGG
Found at i:49744337 original size:173 final size:172
Alignment explanation
Indices: 49743980--49744402 Score: 738
Period size: 173 Copynumber: 2.5 Consensus size: 172
49743970 ATTAGCGGCG
* *
49743980 TTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCGGCTAAGCGCCGCTAA
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAA
*
49744045 AGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCTCTAAAGACCATGGTCTATAGTGGCGT
66 AGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGT
* *
49744110 TTTGTGGCTAAGCGCTGCTAAAGACCATGATCTATAGTGGCG
131 TTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCA
* * *
49744152 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGTCGCTAA
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAA
*
49744217 AGACCATGGTCTATAGTGGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
66 AGACCATGGTCTATAGTGGCG-TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
49744282 TTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCA
130 TTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCA
* *
49744325 TTTTTCGGCTAAGCACCGCTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAA
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAA
49744390 AGACCATGGTCTA
66 AGACCATGGTCTA
49744403 CAGCAGCGTT
Statistics
Matches: 237, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
172 82 0.35
173 155 0.65
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (172 bp):
TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAA
AGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGT
TTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCA
Found at i:49744412 original size:43 final size:43
Alignment explanation
Indices: 49743976--49744402 Score: 710
Period size: 43 Copynumber: 9.9 Consensus size: 43
49743966 CAAAATTAGC
*
49743976 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
49744019 GGCGTTTTTCGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
49744062 GGCGTTTTTTGGCTAAGCGCCTCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49744105 GGCGTTTTGTGGCTAAGCGCTGCTAAAGACCATGATCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
49744148 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
49744191 GGCGTTTTTTGTCTAAGCGTCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
49744234 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCG-TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
49744278 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
49744321 GGCATTTTTCGGCTAAGCACCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
49744364 GGCGTTTTTAGGCTAAGCGCCGCTAAAGACCATGGTCTA
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTA
49744403 CAGCAGCGTT
Statistics
Matches: 356, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
43 316 0.89
44 40 0.11
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:49744561 original size:21 final size:21
Alignment explanation
Indices: 49744518--49744561 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49744508 ATTTGCGGCA
*
49744518 CTAAAAAACGCCGCTATAGAC
1 CTAAAAAACGCCGCTATAAAC
49744539 CTAAAAAAGCGCCGCTA-AAAC
1 CTAAAAAA-CGCCGCTATAAAC
49744560 CT
1 CT
49744562 TGTTTTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.43, C:0.30, G:0.14, T:0.14
Consensus pattern (21 bp):
CTAAAAAACGCCGCTATAAAC
Found at i:49744742 original size:16 final size:17
Alignment explanation
Indices: 49744712--49744744 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
49744702 ATTTGTGATA
49744712 ATTATTACTAATTTAAT
1 ATTATTACTAATTTAAT
49744729 ATTATTAC-AATTTAAT
1 ATTATTACTAATTTAAT
49744745 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATTACTAATTTAAT
Found at i:49746368 original size:26 final size:27
Alignment explanation
Indices: 49746339--49746391 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
49746329 TTTGTTTTTC
49746339 TATTTCTAA-AAATAAAT-TTCTCAACA
1 TATTTCTAATAAAT-AATCTTCTCAACA
49746365 TATTTCTAATTAAATAATCTTCTCAAC
1 TATTTCTAA-TAAATAATCTTCTCAAC
49746392 CAAATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
27 3 0.12
28 12 0.50
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTTCTAATAAATAATCTTCTCAACA
Found at i:49746674 original size:41 final size:43
Alignment explanation
Indices: 49746629--49746709 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 43
49746619 TCATTTTGGA
* *
49746629 GAAAACCATAATTATTTCCAAGTG-TTTC-CATTTCTCCAATT
1 GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCAATT
*
49746670 GAAAACCATAATCATTTTCAAATGATTTCTCATTTCTCCA
1 GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCA
49746710 TTTTTACCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 21 0.60
42 4 0.11
43 10 0.29
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (43 bp):
GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCAATT
Found at i:49764234 original size:9 final size:9
Alignment explanation
Indices: 49764220--49764266 Score: 94
Period size: 9 Copynumber: 5.2 Consensus size: 9
49764210 TTGGTTTTCG
49764220 AATTCAAAT
1 AATTCAAAT
49764229 AATTCAAAT
1 AATTCAAAT
49764238 AATTCAAAT
1 AATTCAAAT
49764247 AATTCAAAT
1 AATTCAAAT
49764256 AATTCAAAT
1 AATTCAAAT
49764265 AA
1 AA
49764267 ACCAAATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
AATTCAAAT
Found at i:49764272 original size:27 final size:27
Alignment explanation
Indices: 49764220--49764274 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
49764210 TTGGTTTTCG
**
49764220 AATTCAAATAATTCAAATAATTCAAAT
1 AATTCAAATAATTCAAATAAACCAAAT
49764247 AATTCAAATAATTCAAATAAACCAAAT
1 AATTCAAATAATTCAAATAAACCAAAT
49764274 A
1 A
49764275 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (27 bp):
AATTCAAATAATTCAAATAAACCAAAT
Found at i:49766244 original size:20 final size:20
Alignment explanation
Indices: 49766208--49766245 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49766198 TCATAAAATT
**
49766208 TTATAAAATTATTAAAATAA
1 TTATAAAATTAAGAAAATAA
49766228 TTATAAAATTAAGAAAAT
1 TTATAAAATTAAGAAAAT
49766246 TACATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTATAAAATTAAGAAAATAA
Found at i:49769544 original size:14 final size:14
Alignment explanation
Indices: 49769525--49769552 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49769515 GGTTTCTGAT
49769525 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
49769539 TTTGTTTTGGGCCA
1 TTTGTTTTGGGCCA
49769553 CCGTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTGTTTTGGGCCA
Found at i:49770490 original size:65 final size:67
Alignment explanation
Indices: 49770386--49770513 Score: 217
Period size: 65 Copynumber: 1.9 Consensus size: 67
49770376 TTTAATAAAA
49770386 TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
1 TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
49770451 TT
66 TT
*
49770453 TTATATTTTTTAT-T-TAAAATATTTAC-ACATAATATAATTTAGTGCATATATAAAAATTTAA
1 TTATATTTTTTATATATAAAATATTTACGA-ATAACATAATTTAGTGCATATATAAAAATTTAA
49770514 ACATTATCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
64 1 0.02
65 44 0.75
66 1 0.02
67 13 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (67 bp):
TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
TT
Found at i:49770790 original size:20 final size:20
Alignment explanation
Indices: 49770767--49770827 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
49770757 CATCTCTGCG
*
49770767 TTTCCCTTTTTTCCTTCTTA
1 TTTCCCTTTTTTCCTTATTA
*
49770787 TTTCCC----TT-CATATTA
1 TTTCCCTTTTTTCCTTATTA
*
49770802 TTTCCCTTTTTTCCTTTTTA
1 TTTCCCTTTTTTCCTTATTA
49770822 TTTCCC
1 TTTCCC
49770828 CATCTACAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTCCCTTTTTTCCTTATTA
Found at i:49771995 original size:15 final size:15
Alignment explanation
Indices: 49771975--49772006 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49771965 TATTAGACTG
49771975 AAATGCTTTACTATT
1 AAATGCTTTACTATT
49771990 AAATGCTTTACTATT
1 AAATGCTTTACTATT
49772005 AA
1 AA
49772007 GTTGTGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATGCTTTACTATT
Found at i:49777752 original size:63 final size:63
Alignment explanation
Indices: 49777674--49777799 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
49777664 TCTGCCAGCA
* * *
49777674 GAGACATTCTTGCACTCGCTTCCTTTGAGGTTAACCTTTCTAGCATAGTGCTAGGGAGCACTG
1 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
49777737 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
1 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
49777800 TTACCGTCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (63 bp):
GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
Found at i:49778604 original size:16 final size:16
Alignment explanation
Indices: 49778583--49778622 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
49778573 TGAATTACTT
*
49778583 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
49778599 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
49778615 ATTACAGC
1 ATTACAGC
49778623 GAACCAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:49779903 original size:23 final size:23
Alignment explanation
Indices: 49779854--49779904 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
49779844 AACCATGTTT
* * * *
49779854 TAGAATACTGCAAATTGTATTTG
1 TAGAATACAGCAAACTGTATCTA
*
49779877 TAGAATGCAGCAAACTGTATCTA
1 TAGAATACAGCAAACTGTATCTA
49779900 TAGAA
1 TAGAA
49779905 ATGTCGAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (23 bp):
TAGAATACAGCAAACTGTATCTA
Found at i:49779939 original size:46 final size:46
Alignment explanation
Indices: 49779863--49779989 Score: 118
Period size: 46 Copynumber: 2.7 Consensus size: 46
49779853 TTAGAATACT
* * **
49779863 GCAAATTGTATTTGTAGAATGCA--GCAAACTGTATCTATAGAAATGTC
1 GCAAATTGTA-TTGTAGAAT-TATTGC-AACTGTATCTACAGAAACATC
* *
49779910 G-AGAATTGTATTGTAGAATATATTG-AACTGTATTTACAGAAACATT
1 GCA-AATTGTATTGTAGAAT-TATTGCAACTGTATCTACAGAAACATC
49779956 GCAAATTGTATTGTAGAATTATTGCAATCTGTAT
1 GCAAATTGTATTGTAGAATTATTGCAA-CTGTAT
49779990 TGTCTGTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
45 5 0.07
46 46 0.69
47 15 0.22
48 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (46 bp):
GCAAATTGTATTGTAGAATTATTGCAACTGTATCTACAGAAACATC
Found at i:49779979 original size:23 final size:22
Alignment explanation
Indices: 49779913--49779992 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
49779903 AAATGTCGAG
49779913 AATTGTATTGTAGAATATATTG-
1 AATTGTATTGTAGAAT-TATTGC
* **
49779935 AACTGTATT-TACAGAAACATTGC
1 AATTGTATTGT--AGAATTATTGC
49779958 AAATTGTATTGTAGAATTATTGC
1 -AATTGTATTGTAGAATTATTGC
49779981 AATCTGTATTGT
1 AAT-TGTATTGT
49779993 CTGTATTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 21 0.46
24 8 0.17
25 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (22 bp):
AATTGTATTGTAGAATTATTGC
Found at i:49780020 original size:32 final size:32
Alignment explanation
Indices: 49779962--49780022 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
49779952 CATTGCAAAT
***
49779962 TGTATTGTAGAATTATTGCAATCTGTATTGTC
1 TGTATTGTAGAATTACCACAATCTGTATTGTC
49779994 TGTATTGTAGAATTACCACGAA-CTGTATT
1 TGTATTGTAGAATTACCAC-AATCTGTATT
49780023 TACAGAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (32 bp):
TGTATTGTAGAATTACCACAATCTGTATTGTC
Found at i:49780094 original size:47 final size:47
Alignment explanation
Indices: 49779994--49780110 Score: 121
Period size: 47 Copynumber: 2.5 Consensus size: 47
49779984 CTGTATTGTC
* * * * * * *
49779994 TGTATTGTAGAATTACCACGAACTGTATTTACAGAAATGCTGGGAAC
1 TGTATTATAGAATTACAACAAACTATATGTACAGAAATGCTGCGAAA
* * *
49780041 TATATTATAAAATTACTACAAACTATATGTACAGAAATG-TCGCGAAA
1 TGTATTATAGAATTACAACAAACTATATGTACAGAAATGCT-GCGAAA
49780088 TGTATTATAGAA-TACAACAAACT
1 TGTATTATAGAATTACAACAAACT
49780111 GTATTGTAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
46 11 0.19
47 46 0.81
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (47 bp):
TGTATTATAGAATTACAACAAACTATATGTACAGAAATGCTGCGAAA
Found at i:49780194 original size:54 final size:54
Alignment explanation
Indices: 49780149--49780689 Score: 476
Period size: 54 Copynumber: 10.1 Consensus size: 54
49780139 CTTGTATGTT
* * * * ** *
49780149 GAAGATCGTGATTGTAAATCAGTGGACCGTGAGATTTGTAAAATCTTGCAAGT-
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
** * * * * **
49780202 --AGGTCGTGATCATAAATTAGCGAATTGTGAGATTTGTAAAATCCTATAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * *
49780254 GAAGGTCGTGATTGTAAGTCAGAGGACCGTGAGATTCGTAAAATCTCGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * * * * * * *
49780308 GAAAGTCATGATCGTAAATCAACAGACTGTGATATTTGTAAAATCCTGAAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* ** * * *
49780362 GAAGGTCATGATCATAAATCAGCAGAGTATGAGATTCGTAAAATCCCGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * * *
49780416 AAAGGTCATGATCGTAAATCAGCAGACTGTGAGATTCATAAAATCCCGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* ** * * * *
49780470 AAAGGTCGTGAAGGTAAATCAGCAGACTGTGAGATTCATAAAATCTCGAAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * ** * ** *
49780524 AAAGGTCGTGATTGTAAATCAGTGGACCATGAGATTCATAAAATCCCAAAATTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * * * * *
49780578 AAAGGTCGTGGTTGTAAATCAGTGGACTGTGAGATTTGTAAAATCTCGAAAATA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
* * * *
49780632 GAAGGTCATGATTGTAAATCAGTGGACCGTGAGATTCGTAAAATCACGTAAGTA
1 GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
49780686 GAAG
1 GAAG
49780690 CCACTTGTGG
Statistics
Matches: 405, Mismatches: 80, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
51 40 0.10
54 365 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (54 bp):
GAAGGTCGTGATTGTAAATCAGCGGACTGTGAGATTCGTAAAATCCCGTAAGTA
Found at i:49782672 original size:15 final size:15
Alignment explanation
Indices: 49782652--49782683 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49782642 AGACCCGATA
*
49782652 CATACTCATGCAATT
1 CATACTCATGAAATT
49782667 CATACTCATGAAATT
1 CATACTCATGAAATT
49782682 CA
1 CA
49782684 ATGCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (15 bp):
CATACTCATGAAATT
Found at i:49783137 original size:45 final size:46
Alignment explanation
Indices: 49783065--49783453 Score: 655
Period size: 46 Copynumber: 8.6 Consensus size: 46
49783055 TACGTATGAT
* * **
49783065 CACTTGTCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-GGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
49783108 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
49783154 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
49783199 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
49783244 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
49783289 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
49783335 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
49783381 CACTTATCACTTTGTCACTTGATCAGATAATTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
49783427 CACTTATCACTTTTTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
49783454 AGTACTCAAA
Statistics
Matches: 334, Mismatches: 8, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
43 9 0.03
44 5 0.01
45 154 0.46
46 166 0.50
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:49787099 original size:21 final size:23
Alignment explanation
Indices: 49787068--49787109 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
49787058 AGCTTTATTT
49787068 TTCACCCATTTGATC-TTTTAAC
1 TTCACCCATTTGATCATTTTAAC
*
49787090 TTCA-CCATTTGTTCATTTTA
1 TTCACCCATTTGATCATTTTA
49787110 TAGCTATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.50
Consensus pattern (23 bp):
TTCACCCATTTGATCATTTTAAC
Found at i:49789453 original size:41 final size:41
Alignment explanation
Indices: 49789403--49789887 Score: 458
Period size: 41 Copynumber: 11.9 Consensus size: 41
49789393 TTCTAATCTT
* * *
49789403 TCGGGGCTTTAGAGGCATTTTTGGAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * ** * * *
49789444 TTGGGGCTTTAGTGGTATTTTTGAAAAAGCGTCGGTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
** * *
49789485 TTAGGGCTTTAGCGACGTTTTTGGAAAAGCCCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * *
49789526 TCGCGACTTTCGCGGCGTTTTTGGAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
49789567 CCGGGGCTTTCGCGGTGTTTTTGGAAAATCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * *
49789608 TCGGGGCTTTTGCAGCATTTTTGGAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
49789649 TCGAGGCTTTCGCGGCGTTTTT-GAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * * *
49789689 TTGGGGATTTAGCGACTTTTTTGAAAAAGGGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
**
49789730 TCGGGGCTTTAGCGGCG-TTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGC
* * * ** *
49789771 TTGGGGATTTAGCGGTG-TTTTCCAAGAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAA-AAGCGCCGCTAATGC
* *
49789812 TCGGGGCTTTAGCGACGTTTTTCAGG--AAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTT--GGAAAAGCGCCGCTAATGC
* **
49789853 TTGGGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
49789888 AAAAAAAATT
Statistics
Matches: 366, Mismatches: 71, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
40 40 0.11
41 322 0.88
42 4 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:49789851 original size:204 final size:205
Alignment explanation
Indices: 49789403--49789884 Score: 489
Period size: 204 Copynumber: 2.4 Consensus size: 205
49789393 TTCTAATCTT
** * * *
49789403 TCGGGGCTTTAG-AGGCATTTTTGGAAAAGCGTCGCTAATGCTTGGGGCTTTAG-TG-GTATTTT
1 TCGGGGCTTTAGCA-GCATTTTTGG-AAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGT-TTTT
* * *
49789465 TGAAAAAGCG-TCGGTAATGCTTAGGGCTTTAGCGACGTTTTTGGAAAAGCCCCGCTAATGCTCG
63 TG-AAAAGCGCTCGCTAATGCTTAGGGATTTAGCGACGTTTTTGAAAAAGCCCCGCTAATGCTCG
* ** * * **
49789529 CGACTTTCGCGGCGTTTTTGGAAAAGCACCGCTAATGCCCGGGGCTTTCGCGGTGTTTTTGGAAA
127 CGACTTTAGCGGCGTTTTTCCAAAAGCACCGCTAATGCCCGGGGATTTAGCGGTGTTTTTCCAAA
* *
49789594 ATCGCCACTAATGC
192 AGCACCACTAATGC
* * * *
49789608 TCGGGGCTTTTGCAGCATTTTTGGAAAAGCGCTGCTAATGCTCGAGGCTTTCGCGGCG-TTTTTG
1 TCGGGGCTTTAGCAGCATTTTTGG-AAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGTTTTTTG
* * ** * *
49789672 AAAAGCGCT-GCTAATGCTTGGGGATTTAGCGACTTTTTTGAAAAAGGGCCGCTAATGCTCGGGG
65 AAAAGCGCTCGCTAATGCTTAGGGATTTAGCGACGTTTTTGAAAAAGCCCCGCTAATGCTCGCGA
* **
49789736 CTTTAGCGGCG-TTTTCCAAGAAGCGCCGCTAATGCTTGGGGATTTAGCGGTG-TTTTCCAAGAA
130 CTTTAGCGGCGTTTTTCCAA-AAGCACCGCTAATGCCCGGGGATTTAGCGGTGTTTTTCCAA-AA
*
49789799 GCACCGCTAATGC
193 GCACCACTAATGC
* * *
49789812 TCGGGGCTTTAGC-GACGTTTTTCAGG-AAGCACCGCTAATGCTTGGGGCTTTAGCGGCGTTTTT
1 TCGGGGCTTTAGCAG-CATTTTT--GGAAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGTTTTT
*
49789875 TAAAAAGCGC
63 TGAAAAGCGC
49789885 CGCAAAAAAA
Statistics
Matches: 230, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
203 13 0.06
204 147 0.64
205 65 0.28
206 4 0.02
207 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (205 bp):
TCGGGGCTTTAGCAGCATTTTTGGAAAGCACCGCTAATGCTCGAGGCTTTAGCGGCGTTTTTTGA
AAAGCGCTCGCTAATGCTTAGGGATTTAGCGACGTTTTTGAAAAAGCCCCGCTAATGCTCGCGAC
TTTAGCGGCGTTTTTCCAAAAGCACCGCTAATGCCCGGGGATTTAGCGGTGTTTTTCCAAAAGCA
CCACTAATGC
Found at i:49791297 original size:24 final size:23
Alignment explanation
Indices: 49791270--49791377 Score: 57
Period size: 24 Copynumber: 4.7 Consensus size: 23
49791260 ATCGAAAATG
49791270 AATATTTTATAAAATCACTTAACT
1 AATATTTTATAAAATCACTTAA-T
* *
49791294 AATAATTTCTACAAA--A--TAA-
1 AATATTTTATA-AAATCACTTAAT
* * **
49791313 AAGATTTTAT-AAATAAGAATAAT
1 AATATTTTATAAAATCA-CTTAAT
49791336 AAATATTTTATAAAATCACTTAACT
1 -AATATTTTATAAAATCACTTAA-T
49791361 AATAATTTCTATAAAAT
1 AAT-ATTT-TATAAAAT
49791378 AATTTCTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
17 3 0.05
19 8 0.13
21 3 0.05
22 3 0.05
23 1 0.02
24 24 0.38
25 13 0.21
26 8 0.13
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
AATATTTTATAAAATCACTTAAT
Found at i:49791380 original size:14 final size:15
Alignment explanation
Indices: 49791361--49791391 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
49791351 TCACTTAACT
49791361 AATAATTTCT-ATAA
1 AATAATTTCTAATAA
49791375 AATAATTTCTAATAA
1 AATAATTTCTAATAA
49791390 AA
1 AA
49791392 ATTTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAATTTCTAATAA
Found at i:49791400 original size:18 final size:17
Alignment explanation
Indices: 49791377--49791410 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49791367 TTCTATAAAA
*
49791377 TAATTTCTAATAAAAATT
1 TAATTTATAA-AAAAATT
49791395 TAATTTATAAAAAAAT
1 TAATTTATAAAAAAAT
49791411 AATAAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTTATAAAAAAATT
Found at i:49795517 original size:43 final size:43
Alignment explanation
Indices: 49795464--49795620 Score: 190
Period size: 43 Copynumber: 3.7 Consensus size: 43
49795454 TTTTTGTGAG
* * * * * *
49795464 AAGCGTCGCTAAAGGT-TTGTTCTTTTGCGACGATTGAGATAAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGAT-AA
* *
49795507 AAGCGCCGCTAAAGGTCATGATATTTAGCGACGTTTGTGACAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGATAA
* * *
49795550 AAGCGCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGATAA
*
49795593 AAGCACCGCTAAAGGTCATGATCTTTAG
1 AAGCGCCGCTAAAGGTCATGATCTTTAG
49795621 TGGCGTTTTA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 80 0.82
44 17 0.18
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTGATAA
Found at i:49802390 original size:60 final size:61
Alignment explanation
Indices: 49802289--49802408 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 61
49802279 TTCATTTGCA
* *
49802289 AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCTTAGTATTGTATTGGAATCGCCATT
1 AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCATT
* *
49802350 AAAT-TTAGTACTATATTTGCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCAT
1 AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCAT
49802409 GGTAGTACTG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
60 51 0.93
61 4 0.07
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.41
Consensus pattern (61 bp):
AAATCTTAGTACTATATCTCCAAAATCTTTGTAATCCTAGTATTGTATTGGAATCACCATT
Found at i:49802414 original size:25 final size:25
Alignment explanation
Indices: 49802386--49802437 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
49802376 TTTGTAATCC
* *
49802386 TAGTATTGTATTGGAATCACCATGG
1 TAGTACTGTATTGGAATAACCATGG
49802411 TAGTACTGTATTGGAATAACCATGG
1 TAGTACTGTATTGGAATAACCATGG
49802436 TA
1 TA
49802438 ACTTCTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (25 bp):
TAGTACTGTATTGGAATAACCATGG
Found at i:49804237 original size:21 final size:22
Alignment explanation
Indices: 49804208--49804254 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
49804198 AGACTAATTT
*
49804208 GAAACAAAACA-GAAAAATATG
1 GAAAAAAAACATGAAAAATATG
* *
49804229 GAAAAAAAACATGAAAATTTTG
1 GAAAAAAAACATGAAAAATATG
49804251 GAAA
1 GAAA
49804255 CATGGGTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.64, C:0.06, G:0.15, T:0.15
Consensus pattern (22 bp):
GAAAAAAAACATGAAAAATATG
Found at i:49808862 original size:40 final size:40
Alignment explanation
Indices: 49808814--49809121 Score: 571
Period size: 40 Copynumber: 7.7 Consensus size: 40
49808804 GCAAACACAG
* * *
49808814 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49808854 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49808894 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49808934 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49808974 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49809014 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49809054 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49809094 TTGCCTTCGGGTTTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
49809122 TCCAATGCTC
Statistics
Matches: 262, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 262 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:49812539 original size:31 final size:30
Alignment explanation
Indices: 49812504--49812603 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
49812494 ATGCTATTTT
*
49812504 TTATTGTTTTATTTTTTTTACTGTTTTGTTG
1 TTATT-TTTTATTTTTTTTACTATTTTGTTG
* * *
49812535 TTATTTTCTTATTTTTTTCACTATTTTGCTA
1 TTATTTT-TTATTTTTTTTACTATTTTGTTG
** *
49812566 CCATTTTTCTATTATTTTGCTACTATTTTGTTG
1 TTATTTTT-TATT-TTTT-TTACTATTTTGTTG
49812599 TTATT
1 TTATT
49812604 GTTTGGGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
30 3 0.06
31 33 0.62
32 4 0.08
33 13 0.25
ACGTcount: A:0.14, C:0.10, G:0.08, T:0.68
Consensus pattern (30 bp):
TTATTTTTTATTTTTTTTACTATTTTGTTG
Found at i:49812571 original size:11 final size:11
Alignment explanation
Indices: 49812554--49812595 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
49812544 TATTTTTTTC
49812554 ACTATTTTGCT
1 ACTATTTTGCT
* *
49812565 ACCATTTTTCT
1 ACTATTTTGCT
*
49812576 ATTATTTTGCT
1 ACTATTTTGCT
49812587 ACTATTTTG
1 ACTATTTTG
49812596 TTGTTATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (11 bp):
ACTATTTTGCT
Found at i:49812602 original size:22 final size:22
Alignment explanation
Indices: 49812522--49812603 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
49812512 TTATTTTTTT
* *
49812522 TACTGTTTTGTTGTTATTTT-C
1 TACTATTTTGTTATTATTTTGC
* *
49812543 T--TATTTTTTTCACTATTTTGC
1 TACTATTTTGTT-ATTATTTTGC
*
49812564 TACCATTTT-TCTATTATTTTGC
1 TACTATTTTGT-TATTATTTTGC
*
49812586 TACTATTTTGTTGTTATT
1 TACTATTTTGTTATTATT
49812604 GTTTGGGTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
19 7 0.15
20 6 0.13
21 3 0.06
22 24 0.51
23 7 0.15
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.65
Consensus pattern (22 bp):
TACTATTTTGTTATTATTTTGC
Found at i:49812727 original size:11 final size:11
Alignment explanation
Indices: 49812707--49812737 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
49812697 AAGTATACAT
49812707 ATTT-TTTTAA
1 ATTTGTTTTAA
49812717 ATTTGTTTTAA
1 ATTTGTTTTAA
49812728 ATTTGTTTTA
1 ATTTGTTTTA
49812738 GTGTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (11 bp):
ATTTGTTTTAA
Found at i:49832146 original size:29 final size:32
Alignment explanation
Indices: 49832113--49832179 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
49832103 TTTGTACTAT
49832113 GTTTTTG-CTTGA-CAT-GTGGTGCAATAATA
1 GTTTTTGACTTGAGCATGGTGGTGCAATAATA
* **
49832142 GTTTTGGACTTGAGTTTGGTGGTGCAATAATA
1 GTTTTTGACTTGAGCATGGTGGTGCAATAATA
49832174 -TTTTTG
1 GTTTTTG
49832180 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 6 0.19
30 5 0.16
31 6 0.19
32 14 0.45
ACGTcount: A:0.21, C:0.07, G:0.27, T:0.45
Consensus pattern (32 bp):
GTTTTTGACTTGAGCATGGTGGTGCAATAATA
Found at i:49842211 original size:145 final size:145
Alignment explanation
Indices: 49841943--49842234 Score: 557
Period size: 145 Copynumber: 2.0 Consensus size: 145
49841933 GTAAACTCAG
49841943 TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
1 TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
* *
49842008 ACAGTTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCTTCCATCCTCCAT
66 ACAATTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
49842073 AGCCAATTTCATGTA
131 AGCCAATTTCATGTA
*
49842088 TTTGGTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
1 TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
49842153 ACAATTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
66 ACAATTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
49842218 AGCCAATTTCATGTA
131 AGCCAATTTCATGTA
49842233 TT
1 TT
49842235 ATGCACATAT
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (145 bp):
TTTGCTAGTTTATTAACCTACCATCCTGTCTTATCCATTTTGGATACCATTGCCGCCTACTTCAT
ACAATTTTGACTTTTAGTGTGGACTTAAATTGCCACATCTCCTGTGGAACTCCTCCATCCTCCAT
AGCCAATTTCATGTA
Found at i:49848832 original size:27 final size:28
Alignment explanation
Indices: 49848764--49848833 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
49848754 ATGAGGAAAT
49848764 AATAGCCTTTGTGGTGAAGTTATGAAGG
1 AATAGCCTTTGTGGTGAAGTTATGAAGG
* *
49848792 AATAGCCTTAGTGGTGAA-TTTTGTAAGG
1 AATAGCCTTTGTGGTGAAGTTATG-AAGG
49848820 -ATAGCCTTTGTGGT
1 AATAGCCTTTGTGGT
49848834 ACACTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.36
Consensus pattern (28 bp):
AATAGCCTTTGTGGTGAAGTTATGAAGG
Found at i:49855690 original size:20 final size:21
Alignment explanation
Indices: 49855665--49855718 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
49855655 CTAGAAATTG
*
49855665 GTATTGATACTTGTAA-GAGA
1 GTATTGATACTTGTAATGAAA
* * *
49855685 GTATTGACACCT-TAATTAAA
1 GTATTGATACTTGTAATGAAA
49855705 GTATTGATACTTGT
1 GTATTGATACTTGT
49855719 TGATTCAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 3 0.12
20 22 0.85
21 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (21 bp):
GTATTGATACTTGTAATGAAA
Found at i:49865329 original size:20 final size:20
Alignment explanation
Indices: 49865304--49865352 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
49865294 CTATTGCCTC
*
49865304 TGTCCCTTCCACCATGG-TGT
1 TGTCCCTTCCACCA-GGCTAT
*
49865324 TGTCCCTTCCAGCAGGCTAT
1 TGTCCCTTCCACCAGGCTAT
49865344 TGTCCCTTC
1 TGTCCCTTC
49865353 AATGGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.10, C:0.37, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTCCCTTCCACCAGGCTAT
Found at i:49865446 original size:20 final size:21
Alignment explanation
Indices: 49865418--49865473 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
49865408 GTATCAACTG
* *
49865418 GAAAAGAGAAAGAA-AAGAGA
1 GAAAGGAGAAAGAAGAAGAAA
49865438 GAAAGGAG-AAGAAGAAGAAA
1 GAAAGGAGAAAGAAGAAGAAA
*
49865458 GAAAGAAAGAAAGAAG
1 GAAAG-GAGAAAGAAG
49865474 GTAATGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 5 0.17
20 17 0.57
21 2 0.07
22 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (21 bp):
GAAAGGAGAAAGAAGAAGAAA
Found at i:49865762 original size:21 final size:21
Alignment explanation
Indices: 49865736--49865776 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
49865726 TTTAAATTTG
49865736 TAAGACTTCAATATTATATTA
1 TAAGACTTCAATATTATATTA
49865757 TAAGACTTCAATATTATATT
1 TAAGACTTCAATATTATATT
49865777 TGAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAGACTTCAATATTATATTA
Found at i:49866516 original size:51 final size:50
Alignment explanation
Indices: 49866375--49866516 Score: 153
Period size: 50 Copynumber: 2.8 Consensus size: 50
49866365 AATCTTGCCC
* * ***
49866375 ATCTGACAGGCGCCAATCAATTTTTTATATTAAAAAAATTTAATCGCGCCT
1 ATCTGACA-ACGCGAATCAATTTTTTATATTAAAATTTTTTAATCGCGCCT
*
49866426 ATCTGACAACGCGAATCAATTTTTTA-ATATAAATTTTTTTAATCGCGCCT
1 ATCTGACAACGCGAATCAATTTTTTATAT-TAAAATTTTTTAATCGCGCCT
* * *
49866476 ATCTGA-AAGGTGCGGATCAAATTTTTATATTAAAATTTTTT
1 ATCTGACAA--CGCGAATCAATTTTTTATATTAAAATTTTTT
49866517 TGTTTAAATA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
49 4 0.05
50 39 0.51
51 32 0.42
52 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (50 bp):
ATCTGACAACGCGAATCAATTTTTTATATTAAAATTTTTTAATCGCGCCT
Found at i:49866793 original size:16 final size:16
Alignment explanation
Indices: 49866772--49866809 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
49866762 TTAACTCATT
*
49866772 TAATTTTTATATAATG
1 TAATTTTTATATAATA
49866788 TAATTTTTATATAATA
1 TAATTTTTATATAATA
49866804 TAATTT
1 TAATTT
49866810 CATTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:49869298 original size:20 final size:20
Alignment explanation
Indices: 49869273--49869310 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49869263 ACTAGATCTG
49869273 TTAAAAAAATTTCAAAATTC
1 TTAAAAAAATTTCAAAATTC
* *
49869293 TTAAAACAGTTTCAAAAT
1 TTAAAAAAATTTCAAAAT
49869311 GCAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATTTCAAAATTC
Found at i:49869811 original size:57 final size:54
Alignment explanation
Indices: 49869726--49869840 Score: 185
Period size: 57 Copynumber: 2.1 Consensus size: 54
49869716 ATATTTTATT
*
49869726 AAAAGAAAAAAAGAATATAAAAATTTATTGGCGCTTGTCAGATAGGCGCGATTA
1 AAAAGAAAAAAAGAATATAAAAATTTATTGGCGCTTGTCAGATAGGCGCCATTA
*
49869780 AAAAGAAAAAAAATTAATATAAAAAATTTATTGGCGCTTGTCAGATAGGCGCCATTA
1 AAAAG-AAAAAAA-GAATAT-AAAAATTTATTGGCGCTTGTCAGATAGGCGCCATTA
49869837 AAAA
1 AAAA
49869841 ACATACCATT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
54 5 0.09
55 7 0.12
56 5 0.09
57 39 0.70
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (54 bp):
AAAAGAAAAAAAGAATATAAAAATTTATTGGCGCTTGTCAGATAGGCGCCATTA
Found at i:49869979 original size:15 final size:16
Alignment explanation
Indices: 49869954--49869984 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49869944 ATTGGTTCGT
49869954 AAATAAAAAATATAAA
1 AAATAAAAAATATAAA
49869970 AAAT-AAAAATATAAA
1 AAATAAAAAATATAAA
49869985 GAGAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAAAAATATAAA
Found at i:49870026 original size:9 final size:8
Alignment explanation
Indices: 49869954--49870027 Score: 51
Period size: 9 Copynumber: 8.4 Consensus size: 8
49869944 ATTGGTTCGT
49869954 AAAT-AAA
1 AAATAAAA
49869961 AAATATAAA
1 AAATA-AAA
49869970 AAATAAAA
1 AAATAAAA
*
49869978 ATATAAAGA
1 AAATAAA-A
49869987 GAAATGAAATTA
1 -AAAT-AAA--A
49869999 AAATAAAA
1 AAATAAAA
*
49870007 ACATAAGAA
1 AAATAA-AA
49870016 AAATAATAA
1 AAATAA-AA
49870025 AAA
1 AAA
49870028 GATTGTAGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
7 4 0.07
8 15 0.28
9 21 0.39
10 6 0.11
11 7 0.13
12 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (8 bp):
AAATAAAA
Found at i:49870371 original size:7 final size:7
Alignment explanation
Indices: 49870359--49870388 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
49870349 ATTGTGGGTG
49870359 AGTGAGC
1 AGTGAGC
49870366 AGTGAGC
1 AGTGAGC
49870373 AGTGAGC
1 AGTGAGC
49870380 AGTGAGC
1 AGTGAGC
49870387 AG
1 AG
49870389 AGGCTCCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.43, T:0.13
Consensus pattern (7 bp):
AGTGAGC
Found at i:49871209 original size:12 final size:11
Alignment explanation
Indices: 49871184--49871234 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
49871174 ACAAAATCCC
49871184 TTCTCTC-AAT
1 TTCTCTCTAAT
49871194 TTCTCTCTAAT
1 TTCTCTCTAAT
49871205 ATTCTCTCTAAT
1 -TTCTCTCTAAT
* *
49871217 TCCTCTCAAAT
1 TTCTCTCTAAT
*
49871228 TCCTCTC
1 TTCTCTC
49871235 ATTCCTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 7 0.19
11 19 0.51
12 11 0.30
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (11 bp):
TTCTCTCTAAT
Found at i:49871212 original size:22 final size:20
Alignment explanation
Indices: 49871184--49871240 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 20
49871174 ACAAAATCCC
*
49871184 TTCTCTCAATTTCTCTCTAATA
1 TTCTCTCAATTCCTCTC-AA-A
49871206 TTCTCTCTAATTCCTCTCAAA
1 TTCTCTC-AATTCCTCTCAAA
49871227 TTCCTCTC-ATTCCT
1 TT-CTCTCAATTCCT
49871241 ATTTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.19
21 3 0.09
22 14 0.44
23 9 0.28
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCTCTCAATTCCTCTCAAA
Found at i:49871238 original size:20 final size:23
Alignment explanation
Indices: 49871185--49871240 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 23
49871175 CAAAATCCCT
*
49871185 TCTCTCAATTTCTCTCTAATATTC
1 TCTCTC-ATTCCTCTCTAATATTC
*
49871209 TCTCTAATTCCTCTC-AA-ATTC
1 TCTCTCATTCCTCTCTAATATTC
49871230 -CTCTCATTCCT
1 TCTCTCATTCCT
49871241 ATTTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.34
21 4 0.14
22 2 0.07
23 8 0.28
24 5 0.17
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (23 bp):
TCTCTCATTCCTCTCTAATATTC
Found at i:49873344 original size:51 final size:50
Alignment explanation
Indices: 49873218--49873452 Score: 188
Period size: 51 Copynumber: 4.7 Consensus size: 50
49873208 AAAGTGATGG
* ** * *** *
49873218 TCACGTGTGTAGTAATATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGG
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGAGTACCGGATA-GTTTGA
* * * * * * * *
49873268 TCGCATGTGCAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGAGTACCGGATAG-TTTGA
* *
49873319 TCACGTGTGTAGTACTATGTACAGGCTACTACGAGTATCGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGAGTACCGGATAGTT--TGA
* * * * * *
49873370 TCACGTGTGTAGTACTATGTGCAGGTTACTACGTGAACTGGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGAGTACCGGATAGTTTGA
49873420 TCACGTGTGTAGTACTATGTGA-AGGCTACTACG
1 TCACGTGTGTAGTACTATGT-ACAGGCTACTACG
49873453 TGTATCGAAT
Statistics
Matches: 147, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
49 2 0.01
50 67 0.46
51 76 0.52
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTACAGGCTACTACGAGTACCGGATAGTTTGA
Found at i:49873486 original size:101 final size:102
Alignment explanation
Indices: 49873218--49873493 Score: 301
Period size: 101 Copynumber: 2.7 Consensus size: 102
49873208 AAAGTGATGG
* * * * *
49873218 TCACGTGTGTAGTAATATGTGTAGGCTACTACGTGTACCGGAATGA-AA-GGTCGCATGTGCAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGATAATGGTCACATGTGTAGT
* * *
49873281 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
* * *
49873319 TCACGTGTGTAGTACTATGT-ACAGGCTACTACGAGTATCGGAT-ATTAATGGTCACGTGTGTAG
1 TCACGTGTGTAGTACTATGTGA-AGGCTACTACGTGTATCGAATGA-TAATGGTCACATGTGTAG
* * ** *
49873382 TACTATGTGCAGGTTACTACGTGAACTGGAAAG-TTTGA
64 TACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
* * * * *
49873420 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
49873485 CTATGTGCA
66 CTATGTGCA
49873494 AACCACCGAA
Statistics
Matches: 145, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
99 1 0.01
100 3 0.02
101 102 0.70
102 39 0.27
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGA
Found at i:49875386 original size:7 final size:7
Alignment explanation
Indices: 49875374--49875399 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49875364 TAGTCGATTG
49875374 GTATTTA
1 GTATTTA
49875381 GTATTTA
1 GTATTTA
49875388 GTATTTA
1 GTATTTA
49875395 GTATT
1 GTATT
49875400 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:49876077 original size:18 final size:18
Alignment explanation
Indices: 49876054--49876091 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49876044 TGCCAGGTGC
* *
49876054 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
49876072 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
49876090 GT
1 GT
49876092 TTCTTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:49876362 original size:21 final size:21
Alignment explanation
Indices: 49876338--49876398 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
49876328 CAACACCGAC
49876338 AACCAG-ATCCTCTACCGGAGG
1 AACCAGAATCCTC-ACCGGAGG
* *
49876359 AACCAGAATCCTCGCCGGAGT
1 AACCAGAATCCTCACCGGAGG
* * *
49876380 AACCACAACCCTCGCCGGA
1 AACCAGAATCCTCACCGGA
49876399 AGCTGGACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 29 0.83
22 6 0.17
ACGTcount: A:0.30, C:0.38, G:0.21, T:0.11
Consensus pattern (21 bp):
AACCAGAATCCTCACCGGAGG
Found at i:49879944 original size:126 final size:126
Alignment explanation
Indices: 49879719--49880009 Score: 469
Period size: 126 Copynumber: 2.3 Consensus size: 126
49879709 CCAAACATGC
* * *
49879719 GCTACTGTAGCAAAAGCGCGTCCATGTGGGAGCTTCTTTCAGTACTTCTGTTGACAAAGCATCAT
1 GCTACAGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
* *
49879784 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
* *
49879845 GCTACAGTAGCAAAAGCGCGTCCACGTGGGAGTTTCTTTCAGTACTAT-TGCTGACAAAGCATCT
1 GCTACAGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACT-TCTGCTGACAAAGCATCA
* *
49879909 TGTTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
65 TGCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
49879971 GCTACTA-TAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
1 GCTAC-AGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
49880010 AAATTAACAA
Statistics
Matches: 153, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
126 151 0.99
127 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (126 bp):
GCTACAGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTATACTCAAAATTATTTTTTCAGGA
Found at i:49881155 original size:22 final size:22
Alignment explanation
Indices: 49881130--49881199 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
49881120 TCTTGTTGTT
*
49881130 TTTTACTCTTTTTTTTTTACTA
1 TTTTACTCTTATTTTTTTACTA
* *
49881152 TTTTATTGTTATTTTTTTACTA
1 TTTTACTCTTATTTTTTTACTA
* * * **
49881174 TTTCACTGTTATGTTGATACTA
1 TTTTACTCTTATTTTTTTACTA
49881196 TTTT
1 TTTT
49881200 GTTATTGTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTACTCTTATTTTTTTACTA
Found at i:49888914 original size:66 final size:66
Alignment explanation
Indices: 49888827--49888957 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
49888817 GGTTCTTATC
* * * * *
49888827 CGGATAGCTGTCAGGTGTGGCGACAATTCTGGACGCAGTCTGGAATTAATTCATGCAGTGACATT
1 CGGATAACTGTCAGGCGTGGCGACAATTCTGGACGCAATCTGGAATTAACTCATGCAGCGACATT
49888892 G
66 G
* * * *
49888893 CGGATAACTGTTAGGCGTGGCGACAATTTTGGATGCAATCTGGGATTAACTCATGCAGCGACATT
1 CGGATAACTGTCAGGCGTGGCGACAATTCTGGACGCAATCTGGAATTAACTCATGCAGCGACATT
49888958 AATGCAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (66 bp):
CGGATAACTGTCAGGCGTGGCGACAATTCTGGACGCAATCTGGAATTAACTCATGCAGCGACATT
G
Found at i:49889579 original size:26 final size:26
Alignment explanation
Indices: 49889550--49889600 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
49889540 AAACAAAATC
49889550 AATTCTTCTTCACTATTCACAATCAT
1 AATTCTTCTTCACTATTCACAATCAT
* *
49889576 AATTCTTCTTCATTGTTCACAATCA
1 AATTCTTCTTCACTATTCACAATCA
49889601 CCAACAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTCTTCTTCACTATTCACAATCAT
Found at i:49890696 original size:32 final size:32
Alignment explanation
Indices: 49890659--49890722 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
49890649 AAAGTGTTCG
49890659 TGCATGAATGAAAGAGACTGAGGTTTATGTAA
1 TGCATGAATGAAAGAGACTGAGGTTTATGTAA
49890691 TGCATGAATGAAAGAGACTGAGGTTTATGTAA
1 TGCATGAATGAAAGAGACTGAGGTTTATGTAA
49890723 CACTCCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (32 bp):
TGCATGAATGAAAGAGACTGAGGTTTATGTAA
Found at i:49901908 original size:30 final size:29
Alignment explanation
Indices: 49901873--49901941 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
49901863 CCATCAAATA
49901873 ATGAAAAGGAATAGCTTCTGA-TATCGAGCT
1 ATGAAAAGG-ATAGCTTC-GACTATCGAGCT
*
49901903 TTGAAAAGTGATAGCTTCGACTATCGAGCT
1 ATGAAAAG-GATAGCTTCGACTATCGAGCT
49901933 ATGAAAAGG
1 ATGAAAAGG
49901942 GTTGGGACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 3 0.09
30 31 0.89
31 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGATAGCTTCGACTATCGAGCT
Found at i:49908595 original size:30 final size:31
Alignment explanation
Indices: 49908527--49908600 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
49908517 ATCATCGGCT
49908527 AATGAAAAGGGATAGCTTCGGCTATCAAAAC
1 AATGAAAAGGGATAGCTTCGGCTATCAAAAC
*
49908558 AATGAAAAGGGATAGCCTT-GGCTATC-AAAT
1 AATGAAAAGGGATAG-CTTCGGCTATCAAAAC
*
49908588 TATGAAAAGGGAT
1 AATGAAAAGGGAT
49908601 GGTGACGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 15 0.38
31 22 0.55
32 3 0.08
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (31 bp):
AATGAAAAGGGATAGCTTCGGCTATCAAAAC
Found at i:49908615 original size:30 final size:30
Alignment explanation
Indices: 49908581--49908765 Score: 103
Period size: 30 Copynumber: 6.2 Consensus size: 30
49908571 AGCCTTGGCT
49908581 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTGACGACC
* *
49908611 ATC-AATAATTAAAAGGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTGACGACC
** ** * * *
49908640 ATTGAACAATGAAAAGGGATAGCT-TC-AGCT
1 ATCAAATTATGAAAAGGGAT-GGTGACGA-CC
* * ** * ***
49908670 ATCGAATTGTGAAAAGGGATAACT-TCGGGT
1 ATCAAATTATGAAAAGGGAT-GGTGACGACC
* *
49908700 ATCAAATTATGAAACGGGATGGTGATGACC
1 ATCAAATTATGAAAAGGGATGGTGACGACC
* *
49908730 GTCAACA--ATGAAAGGGGATGGTGACGACC
1 ATCAA-ATTATGAAAAGGGATGGTGACGACC
49908759 ATCAAAT
1 ATCAAAT
49908766 AATAATCGAG
Statistics
Matches: 119, Mismatches: 29, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
28 1 0.01
29 52 0.44
30 63 0.53
31 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTGACGACC
Found at i:49908630 original size:29 final size:30
Alignment explanation
Indices: 49908589--49908659 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 30
49908579 CTATCAAATT
*
49908589 ATGAAAAGGGATGGTGACGACCA-TCAATA
1 ATGAAAAGGGATGGTGACGACCATTCAACA
* *
49908618 ATTAAAAGGGATGGTGACGACCATTGAACA
1 ATGAAAAGGGATGGTGACGACCATTCAACA
49908648 ATGAAAAGGGAT
1 ATGAAAAGGGAT
49908660 AGCTTCAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 22 0.59
30 15 0.41
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATTCAACA
Found at i:49908747 original size:29 final size:29
Alignment explanation
Indices: 49908708--49908763 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
49908698 GTATCAAATT
* *
49908708 ATGAAACGGGATGGTGATGACCGTCAACA
1 ATGAAACGGGATGGTGACGACCATCAACA
*
49908737 ATGAAAGGGGATGGTGACGACCATCAA
1 ATGAAACGGGATGGTGACGACCATCAA
49908764 ATAATAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (29 bp):
ATGAAACGGGATGGTGACGACCATCAACA
Found at i:49908748 original size:119 final size:120
Alignment explanation
Indices: 49908527--49908760 Score: 328
Period size: 119 Copynumber: 2.0 Consensus size: 120
49908517 ATCATCGGCT
* *
49908527 AATGAAAAGGGATAGCTTCGGCTATCAAAACAATGAAAAGGGATAGCCTTGGCTATCAAATTATG
1 AATGAAAAGGGATAGCTTCAGCTATCAAAACAATGAAAAGGGATAGACTTGGCTATCAAATTATG
* *
49908592 AAAAGGGATGGTGACGACCATCAATAATTAAAAGGGATGGTGACGACCATTGAAC
66 AAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATTGAAC
* *** *
49908647 AATGAAAAGGGATAGCTTCAGCTATC-GAATTGTGAAAAGGGATA-ACTTCGGGTATCAAATTAT
1 AATGAAAAGGGATAGCTTCAGCTATCAAAACAATGAAAAGGGATAGACTT-GGCTATCAAATTAT
* * * *
49908710 GAAACGGGATGGTGATGACCGTCAACAATGAAAGGGGATGGTGACGACCAT
65 GAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCAT
49908761 CAAATAATAA
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
118 3 0.03
119 72 0.72
120 25 0.25
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (120 bp):
AATGAAAAGGGATAGCTTCAGCTATCAAAACAATGAAAAGGGATAGACTTGGCTATCAAATTATG
AAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATTGAAC
Found at i:49912438 original size:9 final size:9
Alignment explanation
Indices: 49912420--49912594 Score: 180
Period size: 9 Copynumber: 19.9 Consensus size: 9
49912410 ATCAATAAAT
49912420 TTATGTAAG
1 TTATGTAAG
*
49912429 TTATGGAAG
1 TTATGTAAG
* *
49912438 TTATTTAAT
1 TTATGTAAG
49912447 TTATGTAAG
1 TTATGTAAG
49912456 TTATGTAAG
1 TTATGTAAG
*
49912465 TTATGTAGG
1 TTATGTAAG
*
49912474 CTATGT-A-
1 TTATGTAAG
* *
49912481 TTATCTAAA
1 TTATGTAAG
*
49912490 TAATGTAAG
1 TTATGTAAG
*
49912499 TTA-GGAAGG
1 TTATGTAA-G
49912508 TTATGT-A-
1 TTATGTAAG
49912515 TTATGTAAG
1 TTATGTAAG
*
49912524 TTATTTAAG
1 TTATGTAAG
*
49912533 TTATGCAAG
1 TTATGTAAG
* *
49912542 TTATTTAAT
1 TTATGTAAG
49912551 TTATGTAAG
1 TTATGTAAG
49912560 TTATGTAAG
1 TTATGTAAG
*
49912569 TTATGTAAT
1 TTATGTAAG
49912578 TTATGTAAG
1 TTATGTAAG
49912587 TTATGTAA
1 TTATGTAA
49912595 TTAGAAATTT
Statistics
Matches: 133, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
7 10 0.08
8 5 0.04
9 117 0.88
10 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:49912501 original size:34 final size:34
Alignment explanation
Indices: 49912458--49912537 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
49912448 TATGTAAGTT
*
49912458 ATGTAAGTTATGTAGGCTATGTATTATCTAAATA
1 ATGTAAGTTATGAAGGCTATGTATTATCTAAATA
* * * * *
49912492 ATGTAAGTTAGGAAGGTTATGTATTATGTAAGTT
1 ATGTAAGTTATGAAGGCTATGTATTATCTAAATA
*
49912526 ATTTAAGTTATG
1 ATGTAAGTTATG
49912538 CAAGTTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (34 bp):
ATGTAAGTTATGAAGGCTATGTATTATCTAAATA
Done.